Welcome to International Network for Natural Sciences | INNSpub

Genetic diversity study of chinaberry plants with the use of molecular markers

Research Paper | January 1, 2020

| Download 11

Nadir Ali Rind, Muhammad Rafiq, Muhammad Umar Dahot, Özlem Aksoy, Hafiza Faiza, Khalid Hussain Rind, Abdul Majeed Mangrio

Key Words:

J. Bio. Env. Sci.16( 1), 91-98, January 2020


JBES 2020 [Generate Certificate]


Genetic variation in the natural growing populations appears due to challenging ecological and environmental conditions that leads to evolution. Molecular markers (RAPD & SSR) were applied to investigate ecological effects on the DNA of Melia Azeadarch L. Targeted plants were collected from various areas of Turkey and different locations of Pakistan. Genetic distances among all populations of Chinaberry plants were analyzed by generating dendogram which shows phylogenetic relationship among them. Different conservation strategies should be applied to conserve the genome of the naturally growing M. azedarach L. populations. Genomic DNA was extracted with the protocol followed by TM Plant genomic DNA Mini-prep Kit method. Total amount of DNA was quantified through Qubit® 2.0 Fluorometer. PCR based RAPD and SSR markers were applied for the study of genetic polymorphism among chinaberry DNA samples collected from five different locations of Turkey and three different areas of Pakistan. RAPD and SSR Molecular markers were applied which showed polymorphic bands. According to Jaccard’s similarity index with RAPD markers highest diversity was noted between Edirne and Izmir while the highest similarity index was noted between the genome of Istanbul and Adana. With the applications of SSR markers highest similarity index was noted among genomes of Edirne and Kocaeli. For the conservation and use of plants the study of genetic diversity and its distribution is most important. That will support in determining what to conserve and where to conserve, and will helpful to understand of the taxonomy and origin of targeted plant species. In order to manage germplasm conservation, there is a need to understand the genetic diversity of the wild plants.


Copyright © 2020
By Authors and International Network for
Natural Sciences (INNSPUB)
This article is published under the terms of the Creative
Commons Attribution Liscense 4.0

Genetic diversity study of chinaberry plants with the use of molecular markers

Catană R, Mitoi M, Ion R. 2013. The RAPD techniques used to assess the genetic diversity in Drabadorneri, a critically endangered plant species. Adv. Biosci. Biotechnol. 4(02), 164.

Doligez A, Joly HI. 1997. Genetic diversity and spatial structure within a natural stand of a tropical forest tree species, Carapaprocera (Meliaceae), in French Guiana. Heredity 79(1), 72.

Farooq S, Azam F. 2002. Molecular markers in plant breeding-I: Concepts and characterization. Pak J Biol. Sci 5(10), 1135-1140.

Fischer M, Husi R, Prati D, Peintinger M, van Kleunen M, Schmid B. 2000. RAPD variation among and within small and large populations of the rare clonal plant Ranunculus reptans (Ranunculaceae). Amer. J. of Bot 87(8), 1128-1137.

Gichner T, Patková Z, Száková J, Žnidar I, Mukherjee A. 2008. DNA damage in potato plants induced by cadmium, ethyl methanesulphonate and γ-rays. Environ. Exp. Bot. 6, 113-119.

Govindaraj M, Vetriventhan M, Srinivasan M. 2015. Importance of genetic diversity assessment in crop plants and its recent advances: an overview of its analytical perspectives .Genet res Int.

Huang Z, Liu N, Zhou T, Ju B. 2005. Effects of environmental factors on the population genetic structure in chukar partridge (Alectorischukar). J. of Arid Environ 62, 427-434.

Huenneke LF. 1991. Ecological implications of genetic variation in plant populations. Genetics and conservation of rare plants Oxford University Press, New York, 31-44.

Jaccard P. 1908. Nouvellesrecherchessur la distribution florale. Bull. Soc. Vaud. Sci. Nat 44, 223-270.

Jaume P, Oriane H, Steven D, Ilia JL. 2018. Genome Size Diversity and Its Impact on the Evolution of Land Plants. Genes (9)88, 1-14.

Jin YT, Liu, NF. 2008. Ecological genetics of Phrynocephalus vlangalii on the North Tibetan (Qinghai) Plateau: Correlation between environmental factors and population genetic variability. Brioche. Genet. 46(9-10), 598-604.

Jones CJ, Edwards KJ, Castaglione S, Winfield MO, Sala F, Van de Wiel C Bredemeijer G, Vosman B, Matthes M, Daly A, Brettschneider R. 1997. Reproducibility testing of RAPD, AFLP and SSR markers in plants by a network of European laboratories. Mol. breed. 3(5), 381-390.

Juan A, Sans A, Riba M. 2000. Antifeedant activity of fruit and seed extracts of Melia azedarach and Azadirachta indica on larvae of Sesamianonagrioides. Phytoparasitica 28(4), 311.

Kizhakkayil J, Sasikumar B. 2010. Genetic diversity analysis of ginger (Zingiber officinale Rosc.) germplasm based on RAPD and ISSR markers. Scientia horticulturae 125(1), 73-76.

Kumar NS, Gurusubramanian G. 2011. Random amplified polymorphic DNA (RAPD) markers and its applications. Sci. Vis. 11(3), 116-124.

Masood SM, Okuno K, Anwar R. 2000. Inter and intra-specific variation in SDS-PAGE electro phoregrams of total seed protein in wheat, barley, and their wild species. Pak J. of Bio Sci 12, 2223-2225.

Meena RK, Raj H, Sharma P, Yadav S, Kant R, Bhandari MS. 2018. Assessment of genetic diversity in natural populations of Calamus guruba Buch. Ham. ex Mart. using ISSR marker. Trop. Plant Res 5, 250-259.

Nybom H. 2004.Comparison of different nuclear DNA markers for estimating intraspecific genetic diversity in plants. Mol. ecol 13(5), 1143-1155.

Okon S, Surmacz-Magdziak A. 2011. The use of RAPD markers for detecting genetic similarity and molecular identification of chamomile (Chamomilla recutita (L.) Rausch.) genotypes. Herba Pol 57, 38-47.

Perry MC, McIntosh MS. 1991. Geographical patterns of variation in the USDA soybean germplasm collection: I. Morphological traits. Crop Science 31(5), 1350-1355.

Pither R, Kellman M. 2000. Tree species diversity in small, tropical riparian forest fragments in Belize, Central America. Biodiversity and Conservation 11, 1623-1636.

Pratt DJ, Gwynne MD. 1977. editors. Rangeland management and ecology in East Africa. London: Hodder and Stoughton.

Qadir A, Ilyas M, Akhtar W, Aziz E, Rasheed A, Mahmood T. 1915. Study of genetic diversity in synthetic hexaploid wheats using random amplified polymorphic DNA. J. Animal Plant Sciences 25(6), 1660-1666.

Rind NA, Aksoy O, Dahot MU, Dikilitas S, Rafiq M, Tutunoglu B. 2016. Evaluation of Genetic Diversity among Melia azedarach L (Meliaceae) with RAPD markers. Fresens. Environ. Bull 25, 2374-2382.

Roy S, Roy CS, Das K. 2013. The interplay of DNA polymerase λ in diverse DNA damage repair pathways in higher plant genome in response to environmental and genotoxic stress factors. Plant Signaling & Behavior 8(1), 448-467.

Runo MS, Muluvi GM, Odee DW. 2004. Analysis of genetic structure in Meliavolkensii (Gurke.) populations using random amplified polymorphic DNA. African J. of Biotech 3(8), 421-425.

Sasikala TP, Kamakshamma J. 2015. Genetic Diversity Assessed through RAPD Markers in Terminalia Pallida Brandis. Int. J. Pharm. Sci 7(2), 58.

Scocchi A, Faloci M, Medina R, Olmos S, Mroginski L. 2004. Plant recovery of cryopreserved apical meristem-tips of Melia azedarach L. using encapsulation/dehydration and assessment of their genetic stability. Euphytica 135(1), 29-38.

Thakur S, Choudhary S, Singh A, Ahmad K, Sharma G, Majeed A, Bhardwaj P. 2016. Genetic diversity and population structure of Melia azedarach in North-Western Plains of India. Trees 30(5), 1483-1494.

Tomer Y, Davies TF. 2003. Searching for the autoimmune thyroid disease susceptibility genes: from gene mapping to gene function. Endocrine reviews 24(5), 694-717.

Tonk FA, Tosun M, Ilker E, Istipliler D, Tatar O. 2014. Evaluation and comparison of ISSR and RAPD markers for assessment of genetic diversity in triticale genotypes. Bulg. J. Agric. Sci 20(6), 1413-1420.

Toro MA, Caballero A. 2005. Characterization and conservation of genetic diversity in subdivided populations. Philosophical Transactions of the Royal Society B: Biol. Sci 360(1459), 1367-7138.

Ventura MU, Ito M. 2000. Antifeedant activity of Melia azedarach (L.) extracts to Diabrotica speciosa (Genn.) (Coleoptera: Chrysomelidae) beetles. Braz. Arch Biol. Technol 43(2), 215-219.

Waterworth WM, Drury GE, Bray CM, West CE. 2011. Repairing breaks in the plant genome: the importance of keeping it together. New Phytologist 192(4), 805-822.

Welsh J, McClelland M. 1990. Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acids Res 18(24), 7213-7218.

Williams DA, Rios M, Stephens C, Patel VP. 1991. Fibronectin and VLA-4 in haematopoietic stem cell–microenvironment interactions. Nature 352(6334), 438.

Wu Y, Huang Y. 2008. Molecular mapping of QTLs for resistance to the green bug Schizaphis graminum (Rondani) in Sorghum bicolor (Moench). Theo. Applica. Genet 117(1), 117-124.

Yang Z, Lu R, Dai Z, Yan A, Chen J, Bai Z, Xie D, Tang Q, Cheng C, Xu Y, Su J. 2018. Analysis of genetic diversity and population structure of a worldwide collection of Corchorus olitorius L. germplasm using microsatellite markers. Biotechnol. Eq. 32(4), 961-967.

Yoshiyama KO, Sakaguchi K, Kimura S. 2013. DNA damage response in plants: conserved and variable response compared to animals. Biol 2(4), 1338-1356.

Youn JS, Chung HD. 1998. Genetic relationship among the local varieties of the Korean native squashes (Cucurbita moschata) using RAPD technique. J. Kor. Soc. Hort. Sci, Korea Republic.